COMBINE-lab / pufferfish
An efficient index for the colored, compacted, de Bruijn graph
☆108Updated 3 months ago
Alternatives and similar repositories for pufferfish:
Users that are interested in pufferfish are comparing it to the libraries listed below
- Estimating k-mer coverage histogram of genomics data☆76Updated last year
- A repository for generating strobemers and evalaution☆77Updated 9 months ago
- Squeakr: An Exact and Approximate k -mer Counting System☆85Updated 11 months ago
- GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…☆67Updated 2 years ago
- ⛓ Long Interval Nucleotide K-mer Scaffolder☆73Updated last year
- MeShClust: an intelligent tool for clustering DNA sequences☆37Updated 3 years ago
- 🌈Scaffold genome sequence assemblies using linked or long read sequencing data☆91Updated 2 months ago
- Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, et…☆85Updated last month
- De novo genome assembly and multisample variant calling☆113Updated 5 years ago
- deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads☆44Updated 2 years ago
- alignment to variation graph inducer☆144Updated 3 months ago
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆88Updated 3 years ago
- Yet another k-mer analyzer☆125Updated 9 months ago
- Pairwise whole genome aligner☆143Updated this week
- Catalog of genomic indexes freely available from public clouds☆58Updated last month
- Create Bloom filters for a given reference and then use it to categorize sequences☆76Updated last month
- PGR-TK: Pangenome Research Tool Kit☆96Updated 8 months ago
- Error correction for Illumina RNA-seq reads☆64Updated 10 months ago
- Assembled Genomes Compressor☆159Updated last month
- GenMap - Fast and Exact Computation of Genome Mappability☆104Updated 6 months ago
- Scallop is a reference-based transcriptome assembler for RNA-seq☆89Updated 3 years ago
- Gfapy: a flexible and extensible software library for handling sequence graphs in Python☆66Updated 2 months ago
- A bit-packed k-mer representation (and relevant utilities) for rust☆47Updated 6 months ago
- PacBio hybrid error correction through iterative short read consensus☆60Updated 5 years ago
- REINDEER REad Index for abuNDancE quERy☆57Updated 5 months ago
- Long read aligner☆114Updated last year
- Aligns short reads using dynamic seed size with strobemers☆160Updated this week
- Grep for FASTQ files☆94Updated last month
- A C library for handling bigWig files☆76Updated 2 years ago
- Bidirectional WFA (Paper)☆42Updated 7 months ago